Hi Phillipe
You are filtering using the protein ID (Genbank protein accession) and
as this Ensembl protein ID does not have a corresponding Genbank
protein accession, you will not get this ENSP. Please filter using the
Gene type filter and select protein_coding. That way you will get the
ENSP data you require.
Regards
Rhoda
On 21 Aug 2011, at 22:54, pip pipster wrote:
We are seeing strange things occur with the protein ID filter. For
example, transcript ENST00000345514 is being filtered out by the
following search below. However, you can see that it indeed has a
Preotin ID shown here: http://useast.ensembl.org/Homo_sapiens/Transcript/Summary?db=core;g=ENSG00000127152;r=14:99635624-99737861;t=ENST00000345514
. Any idea why this is being filtered? Could this be a bug in
Biomart/Data or User Error?
Manual (non-Perl)
Homo sapiens genes (GRCh37.p3)
Filters
with protein ID(s): Only
Attributes
Ensembl Gene ID
Ensembl Transcript ID
Same problem occurs using Perl filter as well
$query->addFilter("with_protein_id", ["Only"]);
Thank you,
Phillipe
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Rhoda Kinsella Ph.D.
Ensembl Bioinformatician,
European Bioinformatics Institute (EMBL-EBI),
Wellcome Trust Genome Campus,
Hinxton
Cambridge CB10 1SD,
UK.
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